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feat(Summary workflow): additional annotation dependent metrics

enhancementNew feature or requestNew feature or request

low priorityNot important at the momentNot important at the moment

Status: Open.

#468 In iRNA-COSI/APAeval;

· ninsch3000 opened on Aug 18, 2023

chore: migrate containers from dockerhub.io/apaeval to biocontainers

Status: Open.

#467 In iRNA-COSI/APAeval;

· ninsch3000 opened on Aug 17, 2023

feat(Summary workflow): check that PAS are reported as single nucleotide in input bed

enhancementNew feature or requestNew feature or request

Status: Open.

#458 In iRNA-COSI/APAeval;

· ninsch3000 opened on Jan 10, 2023

feat(Execution workflows / Utils): making RefSeq annotations work for QAPA and PAQR.

blockedSomething prevents progressSomething prevents progress

enhancementNew feature or requestNew feature or request

Status: Open.

#457 In iRNA-COSI/APAeval;

· mrgazzara opened on Dec 20, 2022

chore: remove unnecessary requirement in identification swf

low priorityNot important at the momentNot important at the moment

Status: Open.

#456 In iRNA-COSI/APAeval;

· dominikburri opened on Nov 29, 2022

refactor: Singularity from conda environment might cause errors

low priorityNot important at the momentNot important at the moment

Status: Open.

#418 In iRNA-COSI/APAeval;

· dominikburri opened on Sep 7, 2022

feat(Execution workflow): LABRAT feature to reuse previous makeTFfasta output

enhancementNew feature or requestNew feature or request

low priorityNot important at the momentNot important at the moment

Status: Open.

#406 In iRNA-COSI/APAeval;

· mrgazzara opened on Aug 9, 2022

fix(Summary workflows): don't overwrite previous results on new run

bugSomething isn't workingSomething isn't working

low priorityNot important at the momentNot important at the moment

nextflow

Status: Open.

#400 In iRNA-COSI/APAeval;

· ninsch3000 opened on Aug 5, 2022

docs(Summary Workflows): Logging

documentationImprovements or additions to documentationImprovements or additions to documentation

good first issueGood for newcomersGood for newcomers

low priorityNot important at the momentNot important at the moment

Status: Open.

#394 In iRNA-COSI/APAeval;

· ninsch3000 opened on Jul 28, 2022

feat(Execution workflow): CSI-UTR - report Format 04 BED file in workflow (per-PAS fractional relative usage)

Status: Open.

#388 In iRNA-COSI/APAeval;

· SamBryce-Smith opened on Jul 18, 2022

docs(Execution workflow): update output file specifications for reporting region-level 'polyA site usage scores'

documentationImprovements or additions to documentationImprovements or additions to documentation

Status: Open.

#380 In iRNA-COSI/APAeval;

· SamBryce-Smith opened on Jul 13, 2022

feat(Summary workflows): new SWF for relative usage quantification

metaMeta issue (spawns or lists dependent issues)Meta issue (spawns or lists dependent issues)

Status: Open.

#371 In iRNA-COSI/APAeval;

· ninsch3000 opened on Jul 7, 2022